Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 135 of 253
Found at i:43139913 original size:50 final size:48
Alignment explanation
Indices: 43139794--43139938 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 48
43139784 TACGAGGGTA
* * * * *
43139794 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGACATCGGTATTGT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATG-CATCGGCATCGT
* *
43139843 A-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGACATCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATCG-T
43139892 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCATC
43139939 TGTAACACCC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
48 37 0.45
49 4 0.05
50 42 0.51
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
ATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGCATCGGCATCGT
Found at i:43141313 original size:47 final size:46
Alignment explanation
Indices: 43141111--43141469 Score: 252
Period size: 47 Copynumber: 7.6 Consensus size: 46
43141101 TGCTGCCATA
* *
43141111 TCCCAGACATGGTCTTACGCTGGCTATC-TCCATCGAGGCAGATGCCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CATCGA-GCCGATG-CATG
* * * * * *
43141160 TCCTAGACATGGTCTTACACTAGCTCTCATGTATACGTGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CAT-CGAGCCGATGCATG
* * * *
43141209 TCCCAGACATGTCTTACACTAG--AACAACA-CTTAGCCGAT-CATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATC-GAGCCGATGCATG
* *
43141252 -CCCTAGACACGTCTTACATTGGCTATCATCATCGAGGCCGATGCATG
1 TCCC-AGACATGTCTTACACTGGCTATCATCATCGA-GCCGATGCATG
*
43141299 TCCCAGACATGTCTTACACTGGC-ACTCATC-TCTACGCCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTA-TCATCATCGA-GCCGATG-CATG
* * *
43141346 TCCCAGACATGGTCTTACACTGGCTATCTTAAT-GTAGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCATCG-AGCCGATGCATG
* ** * * *
43141393 TCCCAGACATGTCTTACACTAGCCCTCCTC-TCAATGTCGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTATCATCATCGA-GCCGATG-CATG
* *
43141440 TCCCAGACATGGTCTTATACTGGCTCTCAT
1 TCCCAGACAT-GTCTTACACTGGCTATCAT
43141470 ATAGCCCAAT
Statistics
Matches: 248, Mismatches: 42, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
42 3 0.01
43 20 0.08
44 5 0.02
45 9 0.04
46 40 0.16
47 68 0.27
48 52 0.21
49 40 0.16
50 9 0.04
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTATCATCATCGAGCCGATGCATG
Found at i:43141407 original size:94 final size:93
Alignment explanation
Indices: 43141151--43141464 Score: 338
Period size: 94 Copynumber: 3.4 Consensus size: 93
43141141 CATCGAGGCA
* * * *
43141151 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATGTATACGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-T-TA-ATGTAGCTGATGCATGTCCCAG
* *
43141215 ACATGTCTTACACTAGAACAACA-CT-TAGCC
63 ACATGTCTTACACTAGCAC-TCATCTCTAGCC
* * * * *
43141245 GAT--CATG-CCCTAGACA-CGTCTTACATTGGCTATCATCATCG-AGGCCGATGCATGTCCCAG
1 GATGCCATGTCCC-AGACATGGTCTTACACTGGCTATCTTAAT-GTA-GCTGATGCATGTCCCAG
*
43141305 ACATGTCTTACACTGGCACTCATCTCTACGCC
63 ACATGTCTTACACTAGCACTCATCTCTA-GCC
43141337 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTAGCTGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTAGCTGATGCATGTCCCAGACA
* * * *
43141402 TGTCTTACACTAGCCCTCCTCTCAATGTC
66 TGTCTTACACTAGCACTCATCTCTA-GCC
*
43141431 GATGCCATGTCCCAGACATGGTCTTATACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
43141465 CTCATATAGC
Statistics
Matches: 184, Mismatches: 24, Indels: 24
0.79 0.10 0.10
Matches are distributed among these distances:
88 1 0.01
89 4 0.02
90 35 0.19
91 18 0.10
92 15 0.08
94 88 0.48
95 23 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCTTAATGTAGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTAGCC
Found at i:43150692 original size:47 final size:47
Alignment explanation
Indices: 43150564--43150776 Score: 170
Period size: 47 Copynumber: 4.6 Consensus size: 47
43150554 TATACGTGCT
* * * *
43150564 GATGCATATCCCAGACATGTCTTACACTAGC-A-CA-AAACTGA-GCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATC-GAGGCC
* * *
43150608 GATGCATGTACCAGACACGTCTTACACTGGCTATCATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATCGAGGCC
* * * **
43150655 GATGCATTTCCCAGACATGTCTTACACTGGC-AGTCAT-CTCTACTCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATAATCGAGGCC
* * * * * *
43150701 GATGCCATGTCTCAAACATGGTCTTACATTGGCTATCTTAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAATCGAGGCC
*
43150749 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
43150777 AGCCTTACTC
Statistics
Matches: 133, Mismatches: 27, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 27 0.20
45 1 0.01
46 23 0.17
47 60 0.45
48 20 0.15
49 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTATCATAATCGAGGCC
Found at i:43150767 original size:94 final size:95
Alignment explanation
Indices: 43150626--43150820 Score: 234
Period size: 94 Copynumber: 2.1 Consensus size: 95
43150616 TACCAGACAC
* * * * *
43150626 GTCTTACACTGGCTATCATCATCGAGGCCGATGCATTTCCCAGACATGTCTTACACTGGCAGTCA
1 GTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGC-CTCA
* *
43150691 -TCTCTACT-CCGATGCCATGTCTCAAACATG
65 CTCTC-AATACCGATGCCATGTCCCAAACATG
* * * * *
43150721 GTCTTACATTGGCTATCTTAAT-GTGGCTGATGCATGTCCCAAACATGTCTTACACTAGCCTTAC
1 GTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCAC
*
43150785 TCTCAATACCGATGCCATGTCCCAGACATG
66 TCTCAATACCGATGCCATGTCCCAAACATG
43150815 GTCTTA
1 GTCTTA
43150821 TACTAGCTCT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
93 4 0.05
94 62 0.73
95 19 0.22
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (95 bp):
GTCTTACACTGGCTATCATAATCGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCAC
TCTCAATACCGATGCCATGTCCCAAACATG
Found at i:43151213 original size:30 final size:30
Alignment explanation
Indices: 43151168--43151228 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43151158 ATTCACAACT
* *
43151168 TTGGTAAAATAACCATTTTGCCCCTAGGCC
1 TTGGCAAAATAACCATTTTACCCCTAGGCC
* *
43151198 TTGGCAAAATGACCATTTTACCCCTATGCC
1 TTGGCAAAATAACCATTTTACCCCTAGGCC
43151228 T
1 T
43151229 GAAAATCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
TTGGCAAAATAACCATTTTACCCCTAGGCC
Found at i:43159698 original size:50 final size:50
Alignment explanation
Indices: 43159575--43159813 Score: 254
Period size: 50 Copynumber: 4.8 Consensus size: 50
43159565 TACTAAGGTA
* * * * * *
43159575 ATATGTGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGACATC-AT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGAT
* *
43159624 A-ATAAGAGCTAGTGTAAGACCATGTCTGGAACATGGCGTCGGCACCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGAT
* ** *
43159673 ATATGAGAGCTAGTGTAAGATCATGT-TTAAGACATGGCATTGGC-CTCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATCGGCAC-CGAT
* *
43159723 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
1 ATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGAT
* * * *
43159773 ATATGAAAGCTAATGTAAAACCAAGTCTAGG-ACATGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTCT-GGAACATGGCATC
43159814 AGTATCTTAC
Statistics
Matches: 158, Mismatches: 25, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
48 37 0.23
49 7 0.04
50 110 0.70
51 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (50 bp):
ATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGAT
Found at i:43159759 original size:100 final size:98
Alignment explanation
Indices: 43159575--43159813 Score: 291
Period size: 100 Copynumber: 2.4 Consensus size: 98
43159565 TACTAAGGTA
* * * *
43159575 ATATGTGAGCCAGTGTAAGACCATGTTTCGAACATGGCATCGACATCATAATAAGAGCTAGTGTA
1 ATATGAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATCGACATCATAATAAGAGCCAGTGTA
*
43159640 AGACCATGTCTGGAACATGGCGTCGGCACCGAT
66 AGACCATGTCTGGAACATGGCATCGGCACCGAT
* * * * *
43159673 ATATGAGAGCTAGTGTAAGATCATGTTTA-AGACATGGCATTGGCCTCGATATATGAGAGCCAGT
1 ATATGAGAGCTAGTGTAAGACCATGTTTAGA-ACATGGCATCGACATC-ATA-ATAAGAGCCAGT
*
43159737 GTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
63 GTAAGACCATGTCTGGAACATGGCATCGGCACCGAT
* * * * * *
43159773 ATATGAAAGCTAATGTAAAACCAAGTCTAGGACATGGCATC
1 ATATGAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATC
43159814 AGTATCTTAC
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
97 1 0.01
98 38 0.32
99 3 0.03
100 76 0.64
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (98 bp):
ATATGAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATCGACATCATAATAAGAGCCAGTGTA
AGACCATGTCTGGAACATGGCATCGGCACCGAT
Found at i:43168103 original size:12 final size:12
Alignment explanation
Indices: 43168088--43168112 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43168078 AAGAGATATT
43168088 AGATTTTTCTGA
1 AGATTTTTCTGA
43168100 AGATTTTTCTGA
1 AGATTTTTCTGA
43168112 A
1 A
43168113 TATATGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (12 bp):
AGATTTTTCTGA
Found at i:43171871 original size:43 final size:43
Alignment explanation
Indices: 43171818--43171902 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
43171808 ATATATGTGG
* *
43171818 CATCCGAGCTCGTTGAGTAGTCCGAGTTCATTATGGATGCGAC
1 CATCCGAGCTCGTTAAGTAGTCCGAGTTCATAATGGATGCGAC
* * *
43171861 CATCTGAGCTCGTTAAGTGGTTCGAGTTCATAATGGATGCGA
1 CATCCGAGCTCGTTAAGTAGTCCGAGTTCATAATGGATGCGA
43171903 TACATAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
CATCCGAGCTCGTTAAGTAGTCCGAGTTCATAATGGATGCGAC
Found at i:43175644 original size:15 final size:14
Alignment explanation
Indices: 43175624--43175676 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
43175614 TATGATATTG
43175624 TATCTTGGATTGCTT
1 TATCTTGGATT-CTT
43175639 TATCTTGGATTTCTT
1 TATCTTGGA-TTCTT
*
43175654 TGTCTTGGACTTCTT
1 TATCTTGGA-TTCTT
43175669 TATCTTGG
1 TATCTTGG
43175677 TTTTCATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 32 0.94
16 2 0.06
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.55
Consensus pattern (14 bp):
TATCTTGGATTCTT
Found at i:43178213 original size:30 final size:30
Alignment explanation
Indices: 43178177--43178235 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
43178167 TTTTACGAGC
* *
43178177 TTAGGGGCT-AAATTGCAAATATGTGAAAGG
1 TTAGGGG-TAAAAATGCAAATATGTAAAAGG
*
43178207 TTAGGGGTAAAAATGCAAATTTGTAAAAG
1 TTAGGGGTAAAAATGCAAATATGTAAAAG
43178236 CATGATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (30 bp):
TTAGGGGTAAAAATGCAAATATGTAAAAGG
Found at i:43186670 original size:40 final size:40
Alignment explanation
Indices: 43186626--43186851 Score: 348
Period size: 40 Copynumber: 5.7 Consensus size: 40
43186616 GCTACTTGCT
*
43186626 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43186666 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
43186706 CAAATGCATTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
43186746 CAAATGCCTTCGGAACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
43186786 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
43186825 CAAAAGCCTTCTGGACTTAGCCCGGTT
1 CAAATGCCTTCGGGACTTAGCCCGGTT
43186852 TTCATCCGAA
Statistics
Matches: 171, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 138 0.81
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43194794 original size:40 final size:40
Alignment explanation
Indices: 43194750--43194976 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
43194740 GCTACTTGCT
43194750 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43194790 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43194829 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
43194869 CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
43194909 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
43194948 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43194977 CATCCGAATA
Statistics
Matches: 174, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 73 0.42
40 99 0.57
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43194848 original size:79 final size:80
Alignment explanation
Indices: 43194750--43194976 Score: 370
Period size: 79 Copynumber: 2.9 Consensus size: 80
43194740 GCTACTTGCT
43194750 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-G
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
43194814 TTATAGTAACTCGCA
66 TTATAGTAACTCGCA
* *
43194829 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGAACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43194894 ATATAGTAACTCGCA
66 TTATAGTAACTCGCA
* * *
43194909 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
43194972 GTTAT
65 GTTAT
43194977 CATCCGAATA
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 107 0.78
80 29 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
TTATAGTAACTCGCA
Found at i:43194949 original size:119 final size:119
Alignment explanation
Indices: 43194750--43194976 Score: 375
Period size: 119 Copynumber: 1.9 Consensus size: 119
43194740 GCTACTTGCT
* * * *
43194750 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGT
1 CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
43194815 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 AATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
43194869 CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43194933 AATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
66 AA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
43194977 CATCCGAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 10 0.10
119 90 0.90
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:43202311 original size:42 final size:43
Alignment explanation
Indices: 43202249--43202352 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
43202239 AAGTCTGAAG
* * * *
43202249 TCGTTGAGTGGTCCGGGTTCATGATATATGTG-GCATCCGAGC
1 TCGTTGAGTGGTCCGAGTTCATGATAGATGCGAGCATCCAAGC
* *
43202291 TCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCCAAGC
1 TCGTTGAGTGGTCCGAGTTCATGATAGATGCGAGCATCCAAGC
* *
43202334 TCGTTAAGTGGTCTGAGTT
1 TCGTTGAGTGGTCCGAGTT
43202353 TATAATGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 27 0.51
43 26 0.49
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (43 bp):
TCGTTGAGTGGTCCGAGTTCATGATAGATGCGAGCATCCAAGC
Found at i:43202344 original size:43 final size:42
Alignment explanation
Indices: 43202249--43202363 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
43202239 AAGTCTGAAG
* * ** * *
43202249 TCGTTGAGTGGTCCGGGTTCATGATATATGTGGCATCCGAGC
1 TCGTTGAGTGGTCCGAGTTCATAATGGATGCGGCATCCAAGC
*
43202291 TCGTTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCCAAGC
1 TCGTTGAGTGGTCCGAGTTCATAATGGATGCG-GCATCCAAGC
* * *
43202334 TCGTTAAGTGGTCTGAGTTTATAATGGATG
1 TCGTTGAGTGGTCCGAGTTCATAATGGATG
43202364 TGATACATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (42 bp):
TCGTTGAGTGGTCCGAGTTCATAATGGATGCGGCATCCAAGC
Found at i:43228970 original size:16 final size:16
Alignment explanation
Indices: 43228951--43228981 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43228941 CTTCTTCACT
43228951 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
43228967 TACTTACTTACTTAA
1 TACTCACTTACTTAA
43228982 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:43228987 original size:20 final size:20
Alignment explanation
Indices: 43228948--43228987 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43228938 AAACTTCTTC
* *
43228948 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
43228968 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
43228988 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:43229305 original size:53 final size:54
Alignment explanation
Indices: 43229189--43229427 Score: 233
Period size: 55 Copynumber: 4.5 Consensus size: 54
43229179 ATTTCCATAA
* * * *
43229189 CTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGCCATGT
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
* *
43229238 CTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGCTATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
* * * * *
43229291 CTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGT
1 CTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGCCATGC
* * * *
43229346 ATTGATATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAA-TGCCATGC
* *
43229401 CTTGGCATGGCCTTACATGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
43229428 AAACCCTAAT
Statistics
Matches: 152, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
49 23 0.15
50 1 0.01
52 2 0.01
53 48 0.32
54 10 0.07
55 66 0.43
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGCCATGC
Found at i:43239908 original size:32 final size:31
Alignment explanation
Indices: 43239866--43239939 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
43239856 GCCCTAGGCC
* *
43239866 ACATGTGCGTGGGTGACCACACGGCCCATAAT
1 ACATGGGCGTGGGAGACCACACGGCCCA-AAT
* * **
43239898 ACATGGGCGTGTGAGTCCACACGGCCCACCT
1 ACATGGGCGTGGGAGACCACACGGCCCAAAT
43239929 ACATGGGCGTG
1 ACATGGGCGTG
43239940 TGCCCCTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 12 0.33
32 24 0.67
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.18
Consensus pattern (31 bp):
ACATGGGCGTGGGAGACCACACGGCCCAAAT
Found at i:43239935 original size:31 final size:32
Alignment explanation
Indices: 43239882--43239941 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
43239872 GCGTGGGTGA
43239882 CCACACGGCCCATAATACATGGGCGTGTGAGT
1 CCACACGGCCCATAATACATGGGCGTGTGAGT
**
43239914 CCACACGGCCCA-CCTACATGGGCGTGTG
1 CCACACGGCCCATAATACATGGGCGTGTG
43239942 CCCCTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (32 bp):
CCACACGGCCCATAATACATGGGCGTGTGAGT
Found at i:43255727 original size:12 final size:12
Alignment explanation
Indices: 43255710--43255735 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43255700 GTGTCGCAGG
43255710 CCATGTGCCAGA
1 CCATGTGCCAGA
43255722 CCATGTGCCAGA
1 CCATGTGCCAGA
43255734 CC
1 CC
43255736 GTGTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (12 bp):
CCATGTGCCAGA
Found at i:43263882 original size:50 final size:49
Alignment explanation
Indices: 43263814--43264003 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
43263804 GCATCTTAAG
**
43263814 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC-GA
* * * *
43263864 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATC-GA
** * * * *
43263915 TATGCATAATAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCGA
** * *
43263963 GTACATGTAGTAGCTTGCACTTAGTACTACACACATGACCT
1 -TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT
43264004 CACAATAGAT
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 35 0.31
50 41 0.37
51 36 0.32
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCGA
Found at i:43268045 original size:46 final size:46
Alignment explanation
Indices: 43267978--43268098 Score: 197
Period size: 46 Copynumber: 2.6 Consensus size: 46
43267968 GCCCATAAGC
* * * *
43267978 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
*
43268024 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
43268070 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
43268099 TGCCCAAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAGT
Found at i:43268117 original size:46 final size:45
Alignment explanation
Indices: 43267970--43268104 Score: 155
Period size: 46 Copynumber: 3.0 Consensus size: 45
43267960 TGTAACCCGC
* * * ** * *
43267970 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATGCCCAT
* * *
43268016 CCACAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
43268062 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA
43268105 AATATCCTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
44 5 0.06
45 2 0.03
46 72 0.91
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCAT
Found at i:43270948 original size:21 final size:22
Alignment explanation
Indices: 43270916--43270968 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
43270906 CAACTTTCAG
43270916 ACACCATAAA-TTGCAGCATTTA
1 ACACC-TAAATTTGCAGCATTTA
*
43270938 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTTGCAGCATTTA
*
43270960 ACACATAAA
1 ACACCTAAA
43270969 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (22 bp):
ACACCTAAATTTGCAGCATTTA
Found at i:43276457 original size:37 final size:37
Alignment explanation
Indices: 43276416--43276802 Score: 283
Period size: 37 Copynumber: 10.6 Consensus size: 37
43276406 TAGACGGGTT
* * *
43276416 TATCCCAACCTTTTTAAAAGTTGTCTTAGATAAGGTA
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
** * * *
43276453 TATCCCAACCTTTTT-AAGGTTGTATTAGATGA-CTT
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
** * * *
43276488 TATCTTAACTTTTTTAAAGGTTGCCTTAAACAAGGTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
* * * * **
43276525 TATCCTAACCCTTTT-AGGGTTGCTTTAGACGA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
* * * *
43276560 TATTCCAACTTTTTTTAAGGGTTGCCTTAGAGAAGGTC
1 TATCCCAAC-CTTTTTAAAGGTTGCCTTAGATAAGGTC
* * *
43276598 TATCCCAACCTTTTT-AAGGTTACCTTAAACAA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
* * * *
43276633 TATCCTAACATTTTTTAAGGGTTGCCTTAGACAAGGTC
1 TATCCCAAC-CTTTTTAAAGGTTGCCTTAGATAAGGTC
* ** * *
43276671 TATTCCAACC-TTTTAAAGGTTATCTTAAATGA-GTC
1 TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
* * *
43276706 TATCCCAACCTTTTTTAAGTGTTACCTTAGAT-TGGTC
1 TATCCCAACCTTTTTAAAG-GTTGCCTTAGATAAGGTC
*
43276743 TATCCTAACCTTTTTCAAAGGTTGGCCTT-GACT-AGGTC
1 TATCCCAACCTTTTT-AAAGGTT-GCCTTAGA-TAAGGTC
43276781 TATCCCAACCTTTTTTAAAGGT
1 TATCCCAACC-TTTTTAAAGGT
43276803 CGGCATTGAC
Statistics
Matches: 276, Mismatches: 59, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
35 46 0.17
36 84 0.30
37 93 0.34
38 48 0.17
39 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (37 bp):
TATCCCAACCTTTTTAAAGGTTGCCTTAGATAAGGTC
Found at i:43276596 original size:73 final size:72
Alignment explanation
Indices: 43276400--43276798 Score: 315
Period size: 73 Copynumber: 5.5 Consensus size: 72
43276390 TATCTCAACT
* * * * ** * * *
43276400 TTGCTTTAGACGGGTTTATCCCAACCTTTTTAAAAGTTGTCTTAGATAAGGTATATCCCAACCTT
1 TTGCTTTAGACGAGTCTATTCCAACTTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACCTT
43276465 TTTAAGG
66 TTTAAGG
* * * * * * *
43276472 TTG-TATTAGATGACTTTA-TCTTAACTTTTTTAAAGGTTGCCTTAAACAAGGTCTATCCTAACC
1 TTGCT-TTAGACGAGTCTATTC-CAACTTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACC
* *
43276535 CTTTTAGGG
64 TTTTTAAGG
*
43276544 TTGCTTTAGACGAGTCTATTCCAACTTTTTTTAAGGGTTGCCTTAGAGAAGGTCTATCCCAACCT
1 TTGCTTTAGACGAGTCTATTCCAAC-TTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACCT
43276609 TTTTAAGG
65 TTTTAAGG
* * * * *
43276617 TTACCTTAAACAAGTCTA-TCCTAACATTTTTTAAGGGTTGCCTTAGACAAGGTCTATTCCAACC
1 TTGCTTTAGACGAGTCTATTCC-AAC-TTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACC
*
43276681 TTTTAAAGG
64 TTTTTAAGG
* * * * * * ** *
43276690 TT-ATCTTAAATGAGTCTATCCCAACCTTTTTTAAGTGTTACCTTAGA-TTGGTCTATCCTAACC
1 TTGCT-TTAGACGAGTCTATTCCAA-CTTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACC
43276753 TTTTTCAAAGG
64 TTTTT--AAGG
* * *
43276764 TTGGCCTT-GACTAGGTCTATCCCAACCTTTTTTAA
1 TT-GCTTTAGACGA-GTCTATTCCAA-CTTTTTTAA
43276799 AGGTCGGCAT
Statistics
Matches: 264, Mismatches: 49, Indels: 25
0.78 0.14 0.07
Matches are distributed among these distances:
71 2 0.01
72 89 0.34
73 139 0.53
74 11 0.04
75 23 0.09
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (72 bp):
TTGCTTTAGACGAGTCTATTCCAACTTTTTTAAGGGTTGCCTTAGACAAGGTCTATCCCAACCTT
TTTAAGG
Found at i:43276746 original size:110 final size:108
Alignment explanation
Indices: 43276498--43276794 Score: 307
Period size: 110 Copynumber: 2.7 Consensus size: 108
43276488 TATCTTAACT
* ** * *
43276498 TTTTTAAAGGTTGCCTTAAACAAGGTCTATCCTAACCCTTTT-AGGGTTGCTTTAGACGA-GTCT
1 TTTTT-AAGGTTACCTTAAAC-AGGTCTATCCTAACTTTTTTAAGGGTTGCCTTAGACAAGGTCT
* * * *
43276561 ATTCCAACTTTTTTTAAGGGTTGCCTTAGAGAAGGTCTATCCCAACC
64 ATTCCAAC--CTTTTAAAGGTTACCTTAAAGAAGGTCTATCCCAACC
*
43276608 TTTTTAAGGTTACCTTAAACAAGTCTATCCTAACATTTTTTAAGGGTTGCCTTAGACAAGGTCTA
1 TTTTTAAGGTTACCTTAAACAGGTCTATCCTAAC-TTTTTTAAGGGTTGCCTTAGACAAGGTCTA
*
43276673 TTCCAACCTTTTAAAGGTTATCTTAAATG-A-GTCTATCCCAACC
65 TTCCAACCTTTTAAAGGTTACCTTAAA-GAAGGTCTATCCCAACC
* ** * * *
43276716 TTTTTTAAGTGTTACCTTAGATTGGTCTATCCTAACCTTTTTCAAAGGTTGGCCTT-GACTAGGT
1 -TTTTTAAG-GTTACCTTAAACAGGTCTATCCTAA-CTTTTTTAAGGGTT-GCCTTAGACAAGGT
*
43276780 CTATCCCAACCTTTT
62 CTATTCCAACCTTTT
43276795 TTAAAGGTCG
Statistics
Matches: 160, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
108 26 0.16
109 42 0.26
110 74 0.46
111 18 0.11
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (108 bp):
TTTTTAAGGTTACCTTAAACAGGTCTATCCTAACTTTTTTAAGGGTTGCCTTAGACAAGGTCTAT
TCCAACCTTTTAAAGGTTACCTTAAAGAAGGTCTATCCCAACC
Found at i:43276828 original size:38 final size:38
Alignment explanation
Indices: 43276749--43276828 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
43276739 GGTCTATCCT
* * * *
43276749 AACCTTTTTCAAAGGTTGGCCTTGACTAGGTCTATCCC
1 AACCTTTTTCAAAGGTCGGCATTGACTAGGCCTATCAC
* * *
43276787 AACCTTTTTTAAAGGTCGGCATTGACTGGGCCTTTCAC
1 AACCTTTTTCAAAGGTCGGCATTGACTAGGCCTATCAC
43276825 AACC
1 AACC
43276829 CTTCAATAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (38 bp):
AACCTTTTTCAAAGGTCGGCATTGACTAGGCCTATCAC
Found at i:43278782 original size:74 final size:75
Alignment explanation
Indices: 43278688--43278835 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 75
43278678 TACGATGTGC
* *
43278688 ATGCTGATGTCATAAATAGAGAGTTACACAGCTTGAGGACACGGGCG-GTCCCTATGTCCACACG
1 ATGCTGATGTCATAAATAGAGAGTTACACAGCCTGAAGACACGGGCGTGTCCCTATGTCCACA-G
43278752 A-GCGTGTGAT
65 AGGCGTGTGAT
* * *
43278762 ATGCTGATGTCATAATTAGAGAGTTACACGGCCTGAAGACACGGGCGTGTCCCTATTTCCACAGA
1 ATGCTGATGTCATAAATAGAGAGTTACACAGCCTGAAGACACGGGCGTGTCCCTATGTCCACAGA
43278827 GGCGTGTGA
66 GGCGTGTGA
43278836 CCCTGTTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 45 0.67
75 22 0.33
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (75 bp):
ATGCTGATGTCATAAATAGAGAGTTACACAGCCTGAAGACACGGGCGTGTCCCTATGTCCACAGA
GGCGTGTGAT
Found at i:43279102 original size:26 final size:26
Alignment explanation
Indices: 43279073--43279124 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43279063 GGGTAAGGGG
43279073 TGTTACATTTAGCGGTATCAAAGCAT
1 TGTTACATTTAGCGGTATCAAAGCAT
*
43279099 TGTTACATTTAGTGGTATCAAAGCAT
1 TGTTACATTTAGCGGTATCAAAGCAT
43279125 GGTTTAGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (26 bp):
TGTTACATTTAGCGGTATCAAAGCAT
Found at i:43285429 original size:21 final size:20
Alignment explanation
Indices: 43285401--43285439 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43285391 GTTTCATGGG
43285401 AAAATTTTCT-AAGTTCTCCT
1 AAAATTTT-TAAAGTTCTCCT
43285421 AAAACTTTTTAAAGTTCTC
1 AAAA-TTTTTAAAGTTCTC
43285440 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTTAAAGTTCTCCT
Found at i:43297655 original size:48 final size:46
Alignment explanation
Indices: 43297593--43297733 Score: 160
Period size: 48 Copynumber: 3.0 Consensus size: 46
43297583 AGCTCCTCCC
* *
43297593 GAGCTG-AAACAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCTAT
1 GAGCTGAAAATAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCAAT
* * *
43297638 CGAGTTGAAAAATAGTAAGCTCTATCAAGCTAAAACGGTAAGCTCCAAT
1 -GAGCTG-AAAATAGTAAGCTCTATCGAGCTGAAACGGTAAGCT-CAAT
43297687 GAGCTGAAAATAGTAAGCTCT-TACGAGCTGATATATCGGTAAGCTCA
1 GAGCTGAAAATAGTAAGCTCTAT-CGAGCTGA-A-A-CGGTAAGCTCA
43297734 TACGAGCTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
46 6 0.08
47 21 0.26
48 38 0.47
49 6 0.08
50 9 0.11
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (46 bp):
GAGCTGAAAATAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCAAT
Found at i:43297661 original size:25 final size:23
Alignment explanation
Indices: 43297592--43297717 Score: 121
Period size: 23 Copynumber: 5.3 Consensus size: 23
43297582 AAGCTCCTCC
43297592 CGAGCTGAAACAGTAAGCTCTAT
1 CGAGCTGAAACAGTAAGCTCTAT
*
43297615 CGAGCTGAAACGGTAAGCTCTAT
1 CGAGCTGAAACAGTAAGCTCTAT
* *
43297638 CGAGTTGAAAAATAGTAAGCTCTAT
1 CGAGCTG--AAACAGTAAGCTCTAT
* * * *
43297663 CAAGCTAAAACGGTAAGCTCCAAT
1 CGAGCTGAAACAGTAAGCT-CTAT
*
43297687 -GAGCTGAAAATAGTAAGCTCT-T
1 CGAGCTG-AAACAGTAAGCTCTAT
43297709 ACGAGCTGA
1 -CGAGCTGA
43297718 TATATCGGTA
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.01
23 44 0.54
24 19 0.23
25 18 0.22
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (23 bp):
CGAGCTGAAACAGTAAGCTCTAT
Found at i:43301533 original size:20 final size:20
Alignment explanation
Indices: 43301508--43301546 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43301498 TAGATATATA
43301508 CTATGTATGCAAAATTACCC
1 CTATGTATGCAAAATTACCC
43301528 CTATGTATGCAAAATTACC
1 CTATGTATGCAAAATTACC
43301547 ATATACCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
CTATGTATGCAAAATTACCC
Found at i:43301553 original size:27 final size:28
Alignment explanation
Indices: 43301523--43301585 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 28
43301513 TATGCAAAAT
*
43301523 TACCCCTATGTATGCAAAATTACC-ATA
1 TACCCCTATGTATGCAAAATGACCTATA
*
43301550 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCTATA
43301578 TACCCCTA
1 TACCCCTA
43301586 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.33, C:0.29, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTATA
Found at i:43301744 original size:26 final size:27
Alignment explanation
Indices: 43301691--43301779 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
43301681 AGGAAGCGTC
43301691 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
43301719 CTGGTGGC-CTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
43301745 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
43301774 CTGGTG
1 CTGGTG
43301780 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 16 0.29
27 15 0.27
28 17 0.31
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:43301790 original size:29 final size:27
Alignment explanation
Indices: 43301691--43301779 Score: 117
Period size: 26 Copynumber: 3.2 Consensus size: 27
43301681 AGGAAGCGTC
* *
43301691 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-CTGCCACAAAATATCTGTT
*
43301719 CTGGTGGCCTGCCAC-ATATATCTGTT
1 CTGGTGGCCTGCCACAAAATATCTGTT
43301745 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGC-CTGCCACAAAATATCTGT-T
43301774 CTGGTG
1 CTGGTG
43301780 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 17 0.31
27 13 0.24
28 17 0.31
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCTGCCACAAAATATCTGTT
Found at i:43302742 original size:15 final size:15
Alignment explanation
Indices: 43302714--43302750 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
43302704 GTGGAATGGG
*
43302714 TTTACAAAACAAAGTT
1 TTTA-AAAAAAAAGTT
43302730 TTTAAAAAAAAAGTT
1 TTTAAAAAAAAAGTT
43302745 TTTAAA
1 TTTAAA
43302751 TCTGTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
TTTAAAAAAAAAGTT
Found at i:43302833 original size:11 final size:10
Alignment explanation
Indices: 43302805--43302838 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
43302795 AGCCTGTAAG
43302805 TATTCTGAAT
1 TATTCTGAAT
*
43302815 TTTTCTGAAT
1 TATTCTGAAT
43302825 ATATTCTGAAT
1 -TATTCTGAAT
43302836 TAT
1 TAT
43302839 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:43308813 original size:21 final size:22
Alignment explanation
Indices: 43308787--43308831 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
43308777 CTTCTCAAGG
* *
43308787 TTTGGATCGA-AGGCTTGGATC
1 TTTGGAGCGACAGACTTGGATC
43308808 TTTGGAGCGATCAGACTTGGATC
1 TTTGGAGCGA-CAGACTTGGATC
43308831 T
1 T
43308832 AGCCATCGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (22 bp):
TTTGGAGCGACAGACTTGGATC
Found at i:43309356 original size:28 final size:28
Alignment explanation
Indices: 43309316--43309380 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
43309306 ATGCACTATT
*
43309316 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATGACCATA
* *
43309344 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATA
43309372 ATACCCCTA
1 ATACCCCTA
43309381 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATA
Found at i:43309544 original size:27 final size:27
Alignment explanation
Indices: 43309486--43309575 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 27
43309476 AGGAAGCATC
43309486 CTGGTGG-CTATGCCACAAATTATCTGTT
1 CTGGTGGCCT-TGCCACAAA-TATCTGTT
*
43309514 CTGGTGGCCTTGCCACATATATCTGTT
1 CTGGTGGCCTTGCCACAAATATCTGTT
*
43309541 CTGGTGGCAC-TGCCACAAAATATCTATAT
1 CTGGTGGC-CTTGCCAC-AAATATCTGT-T
43309570 CTGGTG
1 CTGGTG
43309576 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
27 22 0.40
28 24 0.44
29 9 0.16
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCTTGCCACAAATATCTGTT
Found at i:43309586 original size:29 final size:28
Alignment explanation
Indices: 43309496--43309586 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 28
43309486 CTGGTGGCTA
* * *
43309496 TGCCACAAATTATCTGTTCTGGTGGC-C
1 TGCCACAAAATATCTATTCTGGTGACAC
* * *
43309523 TTGCCAC-ATATATCTGTTCTGGTGGCAC
1 -TGCCACAAAATATCTATTCTGGTGACAC
*
43309551 TGCCACAAAATATCTATATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACAC
*
43309580 TGTCACA
1 TGCCACA
43309587 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACAC
Found at i:43309594 original size:55 final size:56
Alignment explanation
Indices: 43309486--43309600 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
43309476 AGGAAGCATC
* * *
43309486 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCTTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCTTGCCACATATATCTGTAT
* *
43309541 CTGGTGGC-ACTGCCACAAAATATCTATATCTGGTGA-CTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGACCT-TGCCACATATATCTGTAT
43309597 CTGG
1 CTGG
43309601 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 31 0.61
56 19 0.37
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCTTGCCACATATATCTGTAT
Found at i:43315925 original size:23 final size:23
Alignment explanation
Indices: 43315895--43316023 Score: 93
Period size: 23 Copynumber: 5.6 Consensus size: 23
43315885 CTAATAACAA
*
43315895 TAAGCTCTAATGATCTAAAACGG
1 TAAGCTCTTATGATCTAAAACGG
* *
43315918 TAAGCTCTTTTGAGT-TAAAACAG
1 TAAGCTCTTATGA-TCTAAAACGG
* *
43315941 TAAGCTC-TATCGAGT-TGAAATGG
1 TAAGCTCTTAT-GA-TCTAAAACGG
* * *
43315964 TAAGCTCTTTTGAGCTGAAACGG
1 TAAGCTCTTATGATCTAAAACGG
** * *
43315987 TAAGCTCCAATGAGCTAAAAACAG
1 TAAGCTCTTATGATCT-AAAACGG
43316011 TAAGCTCTTATGA
1 TAAGCTCTTATGA
43316024 GCTGATATAT
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
22 2 0.02
23 63 0.75
24 19 0.23
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (23 bp):
TAAGCTCTTATGATCTAAAACGG
Found at i:43315947 original size:46 final size:46
Alignment explanation
Indices: 43315883--43316026 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 46
43315873 GCTCCTACTA
*
43315883 AGCTAATAACAATAAGCTCTAATGATCTAAAACGGTAAGCTCTTTTG
1 AGCTAA-AACAGTAAGCTCTAATGATCTAAAACGGTAAGCTCTTTTG
* * *
43315930 AGTTAAAACAGTAAGCTCT-ATCGAGT-TGAAATGGTAAGCTCTTTTG
1 AGCTAAAACAGTAAGCTCTAAT-GA-TCTAAAACGGTAAGCTCTTTTG
* * * * * *
43315976 AGCTGAAACGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTTATG
1 AGCTAAAACAGTAAGCTCTAATGATCT-AAAACGGTAAGCTCTTTTG
43316023 AGCT
1 AGCT
43316027 GATATATCGA
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.03
46 50 0.63
47 27 0.34
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (46 bp):
AGCTAAAACAGTAAGCTCTAATGATCTAAAACGGTAAGCTCTTTTG
Found at i:43316013 original size:24 final size:24
Alignment explanation
Indices: 43315981--43316026 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
43315971 TTTTGAGCTG
*
43315981 AAACGGTAAGCTCCAATGAGCTAA
1 AAACAGTAAGCTCCAATGAGCTAA
**
43316005 AAACAGTAAGCTCTTATGAGCT
1 AAACAGTAAGCTCCAATGAGCT
43316027 GATATATCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (24 bp):
AAACAGTAAGCTCCAATGAGCTAA
Found at i:43319808 original size:27 final size:27
Alignment explanation
Indices: 43319778--43319955 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43319768 ATATTGAGTC
* * * *
43319778 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
43319805 CGCACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43319832 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
43319860 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
43319887 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
43319914 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
43319941 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43319956 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:43325807 original size:31 final size:30
Alignment explanation
Indices: 43325763--43325820 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
43325753 GATACAGCAC
* *
43325763 TAAGTGTGCGAGTTTGATTA-TATAGCACAT
1 TAAGTGTACGAG-TTGATAATTATAGCACAT
43325793 TAAGTGATACGAGTTGATAATTATAGCA
1 TAAGTG-TACGAGTTGATAATTATAGCA
43325821 ACATAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (30 bp):
TAAGTGTACGAGTTGATAATTATAGCACAT
Found at i:43327460 original size:27 final size:26
Alignment explanation
Indices: 43327421--43327516 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 26
43327411 ATATTGAGTC
*
43327421 CGCACACTCAGTGCTATAATCAACACT
1 CGCACACTTAGTGCTATAATCAA-ACT
43327448 CGCACACTTAGTGCTACGT-ATACAAA-T
1 CGCACACTTAGTGCTA--TAAT-CAAACT
*
43327475 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCT--ATAATCAAACT
43327503 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43327517 CGCATGGTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
27 36 0.60
28 19 0.32
29 5 0.08
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (26 bp):
CGCACACTTAGTGCTATAATCAAACT
Found at i:43327514 original size:55 final size:53
Alignment explanation
Indices: 43327421--43327597 Score: 157
Period size: 55 Copynumber: 3.2 Consensus size: 53
43327411 ATATTGAGTC
*
43327421 CGCACACTCAGTGCT--ATAATCAACACTCGCACACTTAGTGCTACGTATACAAAT
1 CGCACACTTAGTGCTACATAATCAA-ACTCGCACACTTAGTGC-ACGTAT-CAAAT
* * *
43327475 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGC-CGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCACG--T-ATCAAAT
* ** *
43327530 CGCACACTTAGTGC-ATCATATTC-ATTTCGCCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAAACTCG-CACACTTAGTGC-ACGTA-TCAAAT
43327585 CGCACACTTAGTG
1 CGCACACTTAGTG
43327598 TGTACAATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
53 2 0.02
54 19 0.18
55 73 0.71
56 8 0.08
57 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCACGTATCAAAT
Found at i:43327540 original size:27 final size:27
Alignment explanation
Indices: 43327447--43327597 Score: 160
Period size: 27 Copynumber: 5.5 Consensus size: 27
43327437 TAATCAACAC
* * *
43327447 TCGCACACTTAGTGCTACGTA-TACAAA
1 TCGCACACTTAGTGCAACATAGT-CAAT
* *
43327474 TCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCAACATAGTC-AAT
** *
43327502 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCAACATAGTCAAT
* * *
43327529 TCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCAAT
*
43327556 TCGCCACACTTAGTGCAACATAGTCAAA
1 TCG-CACACTTAGTGCAACATAGTCAAT
43327584 TCGCACACTTAGTG
1 TCGCACACTTAGTG
43327598 TGTACAATTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 59 0.56
28 47 0.44
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTCAAT
Found at i:43335343 original size:40 final size:40
Alignment explanation
Indices: 43335299--43335486 Score: 256
Period size: 40 Copynumber: 4.7 Consensus size: 40
43335289 GCTACTTGCT
43335299 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
*
43335339 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * * **
43335379 CAAATGCATTCGGGACTTAGCCTGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
43335419 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCA-CA
*
43335458 CAAATTCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
43335487 CATCCGAATA
Statistics
Matches: 131, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 30 0.23
40 99 0.76
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:43345530 original size:27 final size:28
Alignment explanation
Indices: 43345446--43345543 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
43345436 CATGAGATTG
* * * *
43345446 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
43345475 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
43345503 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
43345530 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
43345544 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:43345554 original size:27 final size:27
Alignment explanation
Indices: 43345474--43345556 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
43345464 TAAATTGTAC
* *
43345474 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
43345502 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
43345529 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
43345556 A
1 A
43345557 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:43345557 original size:29 final size:27
Alignment explanation
Indices: 43345446--43345557 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
43345436 CATGAGATTG
** * *
43345446 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
43345475 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
43345503 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
43345530 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
43345558 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:43351233 original size:39 final size:40
Alignment explanation
Indices: 43351179--43351353 Score: 227
Period size: 39 Copynumber: 4.5 Consensus size: 40
43351169 AAACCAAGTA
* * * *
43351179 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43351218 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43351258 CCTTC-GGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43351297 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43351336 CCTT-GGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43351354 TTATCATCCG
Statistics
Matches: 123, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 4 0.03
39 92 0.75
40 27 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43353911 original size:42 final size:42
Alignment explanation
Indices: 43353852--43353944 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
43353842 ATGGATTAGA
*
43353852 CACACGAGCGTGTTTAATGCCATGTGAGGCACACGGCCTATT
1 CACACGGGCGTGTTTAATGCCATGTGAGGCACACGGCCTATT
43353894 CACACGGGCGTGTTTAATGCCATGTGAGGCACACGGCCTATT
1 CACACGGGCGTGTTTAATGCCATGTGAGGCACACGGCCTATT
43353936 CACACGGGC
1 CACACGGGC
43353945 TATGTGATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.22
Consensus pattern (42 bp):
CACACGGGCGTGTTTAATGCCATGTGAGGCACACGGCCTATT
Found at i:43356755 original size:21 final size:22
Alignment explanation
Indices: 43356709--43356761 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
43356699 GTTAAGCCAG
* *
43356709 CATCAAGCTTCTATATACCAAT
1 CATCAAGCTTCCAGATACCAAT
*
43356731 -ATCAAGCTTCCAGATA-CTAT
1 CATCAAGCTTCCAGATACCAAT
*
43356751 CATCAAACTTC
1 CATCAAGCTTC
43356762 ATAAAACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (22 bp):
CATCAAGCTTCCAGATACCAAT
Found at i:43359093 original size:25 final size:25
Alignment explanation
Indices: 43359059--43359108 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
43359049 CAACCAATAG
43359059 ATAAAATTAGCTCACGAAATTTTCA
1 ATAAAATTAGCTCACGAAATTTTCA
*
43359084 ATAAAATTAGCTCACTAAATTTTCA
1 ATAAAATTAGCTCACGAAATTTTCA
43359109 CAGATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAAAATTAGCTCACGAAATTTTCA
Found at i:43359276 original size:19 final size:19
Alignment explanation
Indices: 43359240--43359357 Score: 132
Period size: 19 Copynumber: 6.2 Consensus size: 19
43359230 GGGTGGTACA
*
43359240 CATACTAGCACACGAAGTG
1 CATACTAGCACACAAAGTG
* *
43359259 CATCCTAACACACAAAGTG
1 CATACTAGCACACAAAGTG
*
43359278 CATACTAGCACACAAAGGG
1 CATACTAGCACACAAAGTG
43359297 CATACTAGCACACAAAGTG
1 CATACTAGCACACAAAGTG
* * *
43359316 CATCCTAGCATATGAAA-TG
1 CATACTAGCACA-CAAAGTG
*
43359335 CATACTGGCACACGAAA-TG
1 CATACTAGCACAC-AAAGTG
43359354 CATA
1 CATA
43359358 AACTCGTACA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 80 0.96
20 3 0.04
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (19 bp):
CATACTAGCACACAAAGTG
Found at i:43361743 original size:25 final size:25
Alignment explanation
Indices: 43361722--43361784 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
43361712 ACAAGCTTTG
*
43361722 AATCGGTATGCTCACTCGAGCTGTA
1 AATCGGTATGCTCACTCGAGCTATA
* * * * *
43361747 AATCAGAATACTCGCACGAGCTATA
1 AATCGGTATGCTCACTCGAGCTATA
43361772 AATCGGTATGCTC
1 AATCGGTATGCTC
43361785 TCACAACCTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
AATCGGTATGCTCACTCGAGCTATA
Found at i:43371559 original size:40 final size:40
Alignment explanation
Indices: 43371497--43371680 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
43371487 CGGATGATAA
** *
43371497 CCGGGCTAAGTCCCG-AGAGCATTTGTGTTAG-TGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTAATT
**
43371537 TTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
* * *
43371577 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
* * * *
43371616 CCGGGCTAAGTCCCGAAGGCATTTTTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAT-T
43371656 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43371681 AGCTAGTGGC
Statistics
Matches: 127, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.29
40 87 0.69
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
Found at i:43371631 original size:39 final size:39
Alignment explanation
Indices: 43371539--43371680 Score: 212
Period size: 40 Copynumber: 3.6 Consensus size: 39
43371529 GGCTAATTTT
* * *
43371539 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATACC
43371579 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
* * *
43371618 GGGCTAAGTCCCGAAGGCATTTTTGCAAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTAT-ACC
43371658 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
43371681 AGCTAGTGGC
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 38 0.40
40 56 0.60
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACC
Found at i:43371694 original size:40 final size:40
Alignment explanation
Indices: 43371493--43371703 Score: 193
Period size: 40 Copynumber: 5.3 Consensus size: 40
43371483 TGTTCGGATG
*
43371493 ATAACCGGGCTAAGTCCCG-AGAGCATTTGTGTTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCT
*** *
43371533 A-ATTTTGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGCT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* ***
43371570 ACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 A-TAA--CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
* * **
43371613 AT-ACCGGGCTAAGTCCCGAAGGCATTTTTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
43371652 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
*
43371692 ATATCC-GGCTAA
1 ATAACCGGGCTAA
43371704 ACTCCGAAGG
Statistics
Matches: 141, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
37 4 0.03
38 1 0.01
39 43 0.30
40 86 0.61
41 3 0.02
42 2 0.01
43 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCT
Found at i:43371713 original size:79 final size:79
Alignment explanation
Indices: 43371493--43371703 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
43371483 TGTTCGGATG
* * **
43371493 ATAACCGGGCTAAGTCCCG-AGAGCATTTGTGTTAGTGGCTAATTTTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCT-ATATCCGGCTAAGTCCCGAAGGC
*
43371557 ATTTGTGCGAGCTACT
64 ATTTGTGCAAGCTACT
* * ***
43371573 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCC-GGCTAAGTCCCGAAGGC
* *
43371636 ATTTTTGCAAGTTACT
64 ATTTGTGCAAGCTACT
*
43371652 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGCTAA
43371704 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
79 74 0.69
80 32 0.30
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCAAGCTACT
Found at i:43379646 original size:40 final size:39
Alignment explanation
Indices: 43379554--43379773 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 39
43379544 CGGATGATAA
* * *
43379554 CCGGGCTAAGTCCC--AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
43379593 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
43379632 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-TAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
* *
43379670 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
43379709 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
43379749 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43379774 AGCTAGTGCT
Statistics
Matches: 168, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
38 49 0.29
39 59 0.35
40 60 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:43379803 original size:38 final size:40
Alignment explanation
Indices: 43379550--43379805 Score: 174
Period size: 39 Copynumber: 6.6 Consensus size: 40
43379540 TGTTCGGATG
* * **
43379550 ATAACCGGGCTAAGTCCC--AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAACTCCCGAAG-GCATTTGAGCAAGTTACT
** * * * *
43379589 A-ATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
* * * *
43379628 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TA-T
1 ATA-ACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
* * * * *
43379666 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATA-ACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
* *
43379706 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
* * *
43379745 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGCT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
*
43379784 ATATCC-GGCTAAACT-CCGAAGG
1 ATAACCGGGCT-AACTCCCGAAGG
43379806 TACTTGGTTT
Statistics
Matches: 193, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
38 61 0.32
39 67 0.35
40 65 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAACTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:43386006 original size:8 final size:8
Alignment explanation
Indices: 43385993--43386024 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
43385983 CTAGATCGGC
43385993 AAAAGCCG
1 AAAAGCCG
43386001 AAAAGCCG
1 AAAAGCCG
*
43386009 AAATGCCG
1 AAAAGCCG
43386017 AAAAGCCG
1 AAAAGCCG
43386025 GTATTTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:43386310 original size:28 final size:28
Alignment explanation
Indices: 43386270--43386334 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
43386260 GATGTACTAG
*
43386270 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
43386298 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
43386326 ATACCCCTA
1 ATACCCCTA
43386335 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:43386498 original size:27 final size:28
Alignment explanation
Indices: 43386460--43386554 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 28
43386450 TGCCACAAAT
*
43386460 TATCTGT-TCTGGTGGCCCTGTCACATA
1 TATCTGTATCTGGTGGCACTGTCACATA
* *
43386487 TATCTGT-TCTGGTGGCACTGCCACAAAA
1 TATCTGTATCTGGTGGCACTGTCAC-ATA
* *
43386515 TATCTGTATCTGGTGACTCTGTCACAT-
1 TATCTGTATCTGGTGGCACTGTCACATA
*
43386542 TTTCTGTATCTGG
1 TATCTGTATCTGG
43386555 CAGCCATGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 34 0.59
28 10 0.17
29 14 0.24
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (28 bp):
TATCTGTATCTGGTGGCACTGTCACATA
Found at i:43386548 original size:55 final size:56
Alignment explanation
Indices: 43386440--43386554 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 56
43386430 AGGAAGCGTC
* *
43386440 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGTCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGTCACATATATCTGTAT
* *
43386495 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGTCACATATATCTGTAT
43386551 CTGG
1 CTGG
43386555 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.57
56 22 0.42
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGTCACATATATCTGTAT
Found at i:43387017 original size:19 final size:19
Alignment explanation
Indices: 43386993--43387031 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43386983 TTTTAATTAT
* *
43386993 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
43387012 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
43387031 T
1 T
43387032 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:43394261 original size:27 final size:27
Alignment explanation
Indices: 43394203--43394292 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
43394193 AGGAAGCGTC
43394203 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
43394231 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
43394258 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
43394287 CTGGTG
1 CTGGTG
43394293 ACTCTATCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:43394303 original size:29 final size:28
Alignment explanation
Indices: 43394215--43394303 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
43394205 GGTGGCTATG
* * * *
43394215 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGACACTA
* * *
43394243 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
43394270 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
43394299 TCACA
1 CCACA
43394304 TTTTCTGTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 24 0.47
28 13 0.25
29 14 0.27
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:43394779 original size:19 final size:19
Alignment explanation
Indices: 43394755--43394793 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
43394745 TTTTAATTAT
* *
43394755 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
43394774 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
43394793 T
1 T
43394794 ATGATGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:43402604 original size:14 final size:14
Alignment explanation
Indices: 43402585--43402612 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43402575 TAACTCAGCT
43402585 AAATCACATAACCC
1 AAATCACATAACCC
43402599 AAATCACATAACCC
1 AAATCACATAACCC
43402613 CTAATGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATCACATAACCC
Found at i:43407639 original size:46 final size:46
Alignment explanation
Indices: 43407589--43407764 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
43407579 TGGTTGAGCA
43407589 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43407635 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
43407680 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43407728 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43407765 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43407745 original size:93 final size:93
Alignment explanation
Indices: 43407586--43407757 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43407576 GGATGGTTGA
* *
43407586 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43407651 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
43407679 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43407744 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43407758 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43415057 original size:46 final size:46
Alignment explanation
Indices: 43415007--43415182 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43414997 TGGTTGAGCA
43415007 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43415053 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43415098 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43415146 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43415183 GGGGTTACAT
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43415163 original size:93 final size:93
Alignment explanation
Indices: 43415004--43415175 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43414994 GGATGGTTGA
* *
43415004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43415069 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43415097 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43415162 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43415176 CTTATGGGGG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43423513 original size:42 final size:40
Alignment explanation
Indices: 43423372--43423592 Score: 228
Period size: 39 Copynumber: 5.7 Consensus size: 40
43423362 TTGAATGATG
* * * *
43423372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-GACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
43423411 TCCGGACTAAGAT-CCGAAGGCA-TT-TGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43423449 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAACAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-A-AA
*
43423490 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43423530 TCCGGG-TTAGTCCCGAAGGCATTTGT-CGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43423569 -CCGGGCTATGTCCCGAAGGC-TTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43423593 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
37 11 0.07
38 36 0.23
39 63 0.40
40 10 0.06
41 12 0.08
42 24 0.15
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43423545 original size:81 final size:78
Alignment explanation
Indices: 43423424--43423592 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 78
43423414 GGACTAAGAT
*
43423424 CCGAAGGCA-TT-TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGT-CGAGTTACT-A
*
43423487 CAATCCGGGTTAAGTC
64 CAA-CCGGGCTAAGTC
* * * *
43423503 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGG-TTAGTCCCGAAGGCATTTGTCGAGTTACTAT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTCGAGTTACTAC
*
43423567 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
43423581 CCGAAGGC-TTTG
1 CCGAAGGCATTTG
43423593 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
77 4 0.05
78 18 0.22
79 12 0.15
80 14 0.17
81 32 0.40
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTCGAGTTACTACA
ACCGGGCTAAGTC
Found at i:43433443 original size:46 final size:46
Alignment explanation
Indices: 43433393--43433568 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43433383 TGGTTGAGCA
43433393 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43433439 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43433484 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43433532 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43433569 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43433549 original size:93 final size:93
Alignment explanation
Indices: 43433390--43433561 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43433380 GGATGGTTGA
* *
43433390 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43433455 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43433483 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43433548 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43433562 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43435468 original size:20 final size:20
Alignment explanation
Indices: 43435426--43435468 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
43435416 TATGGATGTA
*
43435426 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
43435446 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
43435466 TAT
1 TAT
43435469 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:43445744 original size:16 final size:16
Alignment explanation
Indices: 43445686--43445755 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
43445676 GTAGATCGGC
* *
43445686 AAAACCCAAAATGCCG
1 AAAAGCCAAAACGCCG
* * **
43445702 AAGAGCTAAAATACCG
1 AAAAGCCAAAACGCCG
**
43445718 AAAAGTAAAAACGCCG
1 AAAAGCCAAAACGCCG
43445734 AAAAGCCAAAACGCCG
1 AAAAGCCAAAACGCCG
43445750 AAAAGC
1 AAAAGC
43445756 TGAAAGTCTG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.53, C:0.24, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGCCAAAACGCCG
Found at i:43446081 original size:28 final size:29
Alignment explanation
Indices: 43445970--43446082 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
43445960 GAATGCATGT
** * *
43445970 ATATGAATGTTATTTGAGTCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* * *
43445999 GTATGAATGTGATTTGGTCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
43446028 ATAAGAAT-ATGATTTGGGCCTAATGGGCC
1 ATATGAATGA-GATTTGGGCCTAATGGGCC
* *
43446057 ATGTGAATGAGA-TTGGGCCTCATGGG
1 ATATGAATGAGATTTGGGCCTAATGGG
43446083 ATATATGCAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 13 0.19
29 56 0.80
30 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:43450598 original size:29 final size:29
Alignment explanation
Indices: 43450555--43450650 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
43450545 GAAAGCATGT
*
43450555 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
43450584 GTATGAATGTGATTTGGGCCAAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
43450613 ATATGAATAAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
43450641 ATATGCATGT
1 ATATGAATGT
43450651 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:43453816 original size:23 final size:22
Alignment explanation
Indices: 43453740--43453825 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 22
43453730 GATATATGAA
*
43453740 TCATAAGAGCTTTCTGTTCTCAGC
1 TCAT-AGAGCTTACTGTT-TCAGC
*
43453764 TCATATGAGCTTACTG-TTCATC
1 TCATA-GAGCTTACTGTTTCAGC
* *
43453786 TCGTTAGAGCTTACCGTTTCAGC
1 TC-ATAGAGCTTACTGTTTCAGC
43453809 TCAATAGAGCTTACTGT
1 TC-ATAGAGCTTACTGT
43453826 CCATTAGTTC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 15 0.29
23 23 0.45
24 13 0.25
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (22 bp):
TCATAGAGCTTACTGTTTCAGC
Found at i:43457408 original size:45 final size:45
Alignment explanation
Indices: 43457352--43457447 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
43457342 GTTTTTTTAA
*
43457352 CTTTCAAGCTTGATAGTAAGTGCATTCTATCCCCGTTTTCAATGTT
1 CTTT-AAGCTTGATAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
* * *
43457398 TTTTAAGCTTGATAGTAAGTGCATTGTAGCCCCGTTTTTAATGTT
1 CTTTAAGCTTGATAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
43457443 CTTTA
1 CTTTA
43457448 CATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 42 0.93
46 3 0.07
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
CTTTAAGCTTGATAGTAAGTGCATTCTAGCCCCGTTTTCAATGTT
Found at i:43458200 original size:42 final size:42
Alignment explanation
Indices: 43458149--43458256 Score: 110
Period size: 43 Copynumber: 2.5 Consensus size: 42
43458139 TAAGATTAGG
* **
43458149 TGTAAGACCATATCTGGGATATGACATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
* *
43458191 TGTAAGACCATAGT-TGGGTTAATGGCATCGATATGAGATCCCA
1 TGTAAGACCATA-TCTGGGAT-ATGACATCGATATGAGATCCCA
* * * *
43458234 CGTAAGACAATTTCTAGGATATG
1 TGTAAGACCATATCTGGGATATG
43458257 GAATTGGTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
42 21 0.40
43 32 0.60
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
Found at i:43463872 original size:27 final size:27
Alignment explanation
Indices: 43463829--43463900 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
43463819 CTGAACTGAA
* * *
43463829 ACCCCTGTAGGGAAAAATGATCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
*
43463856 GCCCCTATAGGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* *
43463883 ATCCCTATATGGTAAAAT
1 ACCCCTATAGGGTAAAAT
43463901 AACGATTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGTAAT
Found at i:43464096 original size:27 final size:27
Alignment explanation
Indices: 43464036--43464139 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
43464026 GATATAGAGG
* *
43464036 AATTACTG-TACTGGT-GACTATGTCAC
1 AATTACTGTTACTAGTAG-CTATGCCAC
*
43464062 -ATTCACTGTTACTAGTGGCTATGCCAC
1 AATT-ACTGTTACTAGTAGCTATGCCAC
* * * *
43464089 AATTACTGATGCTGGTAGCTTTGCCAC
1 AATTACTGTTACTAGTAGCTATGCCAC
* * *
43464116 ATTTACTGTTTCTAGCAGCTATGC
1 AATTACTGTTACTAGTAGCTATGC
43464140 TGCATTATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
25 3 0.05
26 4 0.07
27 50 0.82
28 4 0.07
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
AATTACTGTTACTAGTAGCTATGCCAC
Found at i:43466580 original size:18 final size:18
Alignment explanation
Indices: 43466557--43466593 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
43466547 TAGACAAATG
43466557 TTAAATATATTGAATTGT
1 TTAAATATATTGAATTGT
43466575 TTAAATATATTGAATTGT
1 TTAAATATATTGAATTGT
43466593 T
1 T
43466594 ATTAGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAAATATATTGAATTGT
Found at i:43467067 original size:40 final size:34
Alignment explanation
Indices: 43466993--43467061 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
43466983 ATAACAGTCT
43466993 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
* *
43467027 AGTATCAGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
43467061 A
1 A
43467062 ATAACAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (34 bp):
AGTATCAGTGTAGGCCTTAGCCCATTACAATAAC
Found at i:43475386 original size:119 final size:120
Alignment explanation
Indices: 43475204--43475426 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
43475194 TCCTCGTTCA
*
43475204 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
43475269 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
43475324 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
43475386 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
43475427 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:43475426 original size:40 final size:40
Alignment explanation
Indices: 43475202--43475426 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
43475192 GCTCCTCGTT
* *
43475202 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
43475242 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
43475282 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
43475322 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
43475361 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
43475402 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43475427 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:43488546 original size:27 final size:27
Alignment explanation
Indices: 43488516--43488691 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
43488506 AATTGTACAA
*
43488516 CACTAAGTGTGCGATTTGACTATGTTG
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
43488543 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
43488570 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
43488597 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
* *
43488625 CACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
43488652 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
43488679 CACTGAGTGTGCG
1 CACTAAGTGTGCG
43488692 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:43488628 original size:82 final size:81
Alignment explanation
Indices: 43488516--43488670 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
43488506 AATTGTACAA
* *
43488516 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
43488580 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
** *
43488597 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
43488662 GCGAGTTGA
65 GCGAATTGA
43488671 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:43488682 original size:82 final size:81
Alignment explanation
Indices: 43488511--43488691 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
43488501 GATTAAATTG
* * *
43488511 TACAACACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43488576 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
43488592 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43488656 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43488674 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43488692 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43491336 original size:30 final size:30
Alignment explanation
Indices: 43491279--43491339 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
43491269 TTCCCGAGCC
* *
43491279 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTATAAATATGAAAAAGTT
* * *
43491309 TAGGGGCAAAATTATAATTTTGAAAAAGTT
1 TAGGGGCAAAAGTATAAATATGAAAAAGTT
43491339 T
1 T
43491340 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTATAAATATGAAAAAGTT
Found at i:43503807 original size:21 final size:21
Alignment explanation
Indices: 43503783--43503834 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
43503773 GCCCCACGAG
* *
43503783 GCCACGACCATGGTTCCACAA
1 GCCACAACCAAGGTTCCACAA
* *
43503804 GCCACAAACAAGGTTCCACAG
1 GCCACAACCAAGGTTCCACAA
43503825 GCCACAACCA
1 GCCACAACCA
43503835 CCATTAGTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.38, G:0.17, T:0.10
Consensus pattern (21 bp):
GCCACAACCAAGGTTCCACAA
Found at i:43504345 original size:45 final size:45
Alignment explanation
Indices: 43504275--43504365 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
43504265 AATTAAATTA
* **
43504275 ACCATTATTAGCAAGTTTAGTTTCATTTAAGTCATA-CATATATAT
1 ACCATTATTAACAAGTTTAACTTCATTTAAGTCA-AGCATATATAT
*
43504320 ACCATTATTAACAGGTTTAACTTCATTTAAGTCAAGCATATATAT
1 ACCATTATTAACAAGTTTAACTTCATTTAAGTCAAGCATATATAT
43504365 A
1 A
43504366 TTAATGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (45 bp):
ACCATTATTAACAAGTTTAACTTCATTTAAGTCAAGCATATATAT
Found at i:43504404 original size:36 final size:36
Alignment explanation
Indices: 43504363--43504434 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
43504353 AAGCATATAT
* * *
43504363 ATATTAATGCATATGTATATTGTTTAGCTTCATTTA
1 ATATTAATACATATATATAATGTTTAGCTTCATTTA
* *
43504399 ATATTAATACATATATTTAATGTTTTGCTTCATTTA
1 ATATTAATACATATATATAATGTTTAGCTTCATTTA
43504435 GGTCATGCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (36 bp):
ATATTAATACATATATATAATGTTTAGCTTCATTTA
Found at i:43508064 original size:21 final size:22
Alignment explanation
Indices: 43508040--43508082 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43508030 TTACATGTAA
* *
43508040 TTATTTAG-TAAATTATATTGT
1 TTATGTAGTTAAATAATATTGT
43508061 TTATGTAGTTAAATAATATTGT
1 TTATGTAGTTAAATAATATTGT
43508083 ACTTCGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TTATGTAGTTAAATAATATTGT
Found at i:43510798 original size:38 final size:38
Alignment explanation
Indices: 43510748--43510843 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 38
43510738 CCAACTCCTT
* * *
43510748 CCAACCCAACACACCATGTG-GAGATAAAATCGACCCAC
1 CCAACCCTACACACCATATGCG-GATAAAATCAACCCAC
* * *
43510786 CCATCCTTACACACCAAATATGCGGATAAAATCAACCCAT
1 CCAACCCTACACACC--ATATGCGGATAAAATCAACCCAC
43510826 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
43510844 GAGTACCGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
38 15 0.32
40 31 0.66
41 1 0.02
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGCGGATAAAATCAACCCAC
Found at i:43516604 original size:468 final size:468
Alignment explanation
Indices: 43515728--43516666 Score: 1637
Period size: 468 Copynumber: 2.0 Consensus size: 468
43515718 TTTCTAGAGG
43515728 CTTGATCATTCAAGGAACACCCGTCCGGGTTAGATTCCTTTCCATACTTAAGATCACGGATTACC
1 CTTGATCATTCAAGGAACACCCGTCCGGGTTAGATTCCTTTCCATACTTAAGATCACGGATTACC
*
43515793 CGTCCGAGCTAAATCCTTACTGCAACACATGCAGGATCTACTTTCACATGTAAAACATGGTTTAT
66 CGTCCGAGCTAAATCCTTACTACAACACATGCAGGATCTACTTTCACATGTAAAACATGGTTTAT
43515858 CCATCGAATTCCCTTTTAACCTCAACCGAGACGGTTATCAACAAGTCATTAACAAAGACGCATTT
131 CCATCGAATTCCCTTTTAACCTCAACCGAGACGGTTATCAACAAGTCATTAACAAAGACGCATTT
*
43515923 CATGCATTTTCATGCCATTAATAATGCAATCATCATGCATTCATAAATCATACAATCATGCATAT
196 CATGCATTTTCATGCCATTAATAATGCAAACATCATGCATTCATAAATCATACAATCATGCATAT
*
43515988 TAGGGGTTTACTTTAAGTTATTCGAACTTACCTGGTAACAGTTTCAGAGTTATGTTTCGGTTATT
261 TAGGGGTTTACTTTAAGTTATTCGAACTTACCTGGTAACAGTTCCAGAGTTATGTTTCGGTTATT
* * * * *
43516053 TCGAAACATTGCGTTTACCTTGATCGGCCTCCGGAATTTGTTCCTCAAGGTCTATAGCAATAAAA
326 CCGAAACATTGCGTTTACCTCGATCGGCCTCCGAAATTTGTTCCTCAAGGTCTATAACAACAAAA
*
43516118 TTAGCTCATTAATACCCCACATTATACATTTCAAGTTTAATATCTACCCCCGGTCCAAATGATTG
391 TTAGCTCATTAATACCCCACATTATACATTTCAAGTTTAATATCTACCCCCGGTCCAAATGACTG
43516183 TTTTGCCCCTAAC
456 TTTTGCCCCTAAC
*
43516196 CTTGATCATTCAAGGAACACCCGTCCGGGTTAGATTCCTTTCCATACTTGAGATCACGGATTACC
1 CTTGATCATTCAAGGAACACCCGTCCGGGTTAGATTCCTTTCCATACTTAAGATCACGGATTACC
* * * *
43516261 CGTCTGGGCTAAATCCTTACTACAACACATGCAGGATGTCCTTTCACATGTAAAACATGGTTTAT
66 CGTCCGAGCTAAATCCTTACTACAACACATGCAGGATCTACTTTCACATGTAAAACATGGTTTAT
* *
43516326 CCATCGAATTCCCTTTTAACCTCAACCGAGACTGTTATCAACAAGTCATTATCAAAGACGCATTT
131 CCATCGAATTCCCTTTTAACCTCAACCGAGACGGTTATCAACAAGTCATTAACAAAGACGCATTT
* *
43516391 CATGCATTTTCATGCCATTAATAATGCAAACATTATGCGTTCATAAATCATACAATCATGCATAT
196 CATGCATTTTCATGCCATTAATAATGCAAACATCATGCATTCATAAATCATACAATCATGCATAT
*
43516456 TAGGGGTTTACTTTAAGTTA-TCTGAACTTACCTGGTATCAGTTCCAGAGTTATGTTTCGGTTAT
261 TAGGGGTTTACTTTAAGTTATTC-GAACTTACCTGGTAACAGTTCCAGAGTTATGTTTCGGTTAT
* ** *
43516520 TCCGAAACCTTGCGTTTACCTCGATCGGCCTCCGAAATTTGTTCCTCGGGGTTTATAACAACAAA
325 TCCGAAACATTGCGTTTACCTCGATCGGCCTCCGAAATTTGTTCCTCAAGGTCTATAACAACAAA
*
43516585 ATTAGCTCATTAATACCCCACATTATGCATTTCAAGTTTAATATCTACCCCCGGTCCAAATGACT
390 ATTAGCTCATTAATACCCCACATTATACATTTCAAGTTTAATATCTACCCCCGGTCCAAATGACT
*
43516650 GTTTTGCCCCTATC
455 GTTTTGCCCCTAAC
43516664 CTT
1 CTT
43516667 TGACATTTTT
Statistics
Matches: 445, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
467 2 0.00
468 443 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (468 bp):
CTTGATCATTCAAGGAACACCCGTCCGGGTTAGATTCCTTTCCATACTTAAGATCACGGATTACC
CGTCCGAGCTAAATCCTTACTACAACACATGCAGGATCTACTTTCACATGTAAAACATGGTTTAT
CCATCGAATTCCCTTTTAACCTCAACCGAGACGGTTATCAACAAGTCATTAACAAAGACGCATTT
CATGCATTTTCATGCCATTAATAATGCAAACATCATGCATTCATAAATCATACAATCATGCATAT
TAGGGGTTTACTTTAAGTTATTCGAACTTACCTGGTAACAGTTCCAGAGTTATGTTTCGGTTATT
CCGAAACATTGCGTTTACCTCGATCGGCCTCCGAAATTTGTTCCTCAAGGTCTATAACAACAAAA
TTAGCTCATTAATACCCCACATTATACATTTCAAGTTTAATATCTACCCCCGGTCCAAATGACTG
TTTTGCCCCTAAC
Found at i:43520956 original size:40 final size:40
Alignment explanation
Indices: 43520882--43521102 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
43520872 AACCCAAGTA
* * * *
43520882 CCTTCGAGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
43520921 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43520961 CCTTCGGGACTTAGCCCGGATATAG-CGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
43521001 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43521041 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
43521080 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43521103 CATCGAATAA
Statistics
Matches: 162, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.22
40 124 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43521129 original size:21 final size:23
Alignment explanation
Indices: 43521099--43521144 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
43521089 CTTAGCCTGG
43521099 ATATCATCGA-ATAATCATG-CAC
1 ATATCATCGATA-AATCATGACAC
43521121 ATAT-ATCGATAAATCATGACAC
1 ATATCATCGATAAATCATGACAC
43521143 AT
1 AT
43521145 CCATATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (23 bp):
ATATCATCGATAAATCATGACAC
Found at i:43532672 original size:56 final size:55
Alignment explanation
Indices: 43532606--43532753 Score: 181
Period size: 56 Copynumber: 2.7 Consensus size: 55
43532596 AATATAGCAT
* *
43532606 GCCTCTCAACAGGGCTACACAAGAGCACCTGGACCTAGCATGCATCACATAACTAC-
1 GCCTCTCAACAGGGCTACAC-A-AGCTCCTGGACCTAGCATGCACCACATAACTACA
* * * * * *
43532662 GCCTCTCAACAAGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTACA
1 GCCTCTCAACAGGGCTACACAAGCTCCTGGACCTAGCATGCACCACATAACTACA
*
43532717 TGCCTCTCAATAGGGCTACACAAGCTCCTGGACCTAG
1 -GCCTCTCAACAGGGCTACACAAGCTCCTGGACCTAG
43532754 GATGTATTAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 27 0.35
55 1 0.01
56 50 0.64
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (55 bp):
GCCTCTCAACAGGGCTACACAAGCTCCTGGACCTAGCATGCACCACATAACTACA
Found at i:43540317 original size:40 final size:39
Alignment explanation
Indices: 43540227--43540318 Score: 96
Period size: 40 Copynumber: 2.4 Consensus size: 39
43540217 AACTTCGTCA
* *
43540227 AACCCAACACACC-ATGTAGGGATAAAATCGACCCACCC
1 AACCCAACACACCAATATAGGGATAAAATCAACCCACCC
* *** *
43540265 ATCCCCGTACACCAAATATAGGGATAAAATCAACCCATCC
1 AACCCAACACACC-AATATAGGGATAAAATCAACCCACCC
*
43540305 AACCCTACACACCA
1 AACCCAACACACCA
43540319 TAAAGTACTG
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
38 9 0.22
39 1 0.02
40 31 0.76
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.13
Consensus pattern (39 bp):
AACCCAACACACCAATATAGGGATAAAATCAACCCACCC
Found at i:43543046 original size:20 final size:22
Alignment explanation
Indices: 43543006--43543047 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
43542996 ATTTTTAATA
*
43543006 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
43543028 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
43543048 AAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:43543058 original size:18 final size:18
Alignment explanation
Indices: 43543035--43543103 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
43543025 TTTTAATAAA
*
43543035 TTATTTAATATTTAAAT-T
1 TTATTTAATA-ATAAATAT
43543053 TTATTTTAATAATAAATAT
1 TTA-TTTAATAATAAATAT
* *
43543072 TTATTACAATTATAAATA-
1 TTATT-TAATAATAAATAT
43543090 -TA-TTAATAATAAAT
1 TTATTTAATAATAAAT
43543104 GTTTTGTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 9 0.21
16 1 0.02
17 2 0.05
18 10 0.23
19 21 0.49
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTTAATAATAAATAT
Found at i:43543559 original size:14 final size:13
Alignment explanation
Indices: 43543540--43543587 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
43543530 CCAGAAAAGT
43543540 AAATCATTTTCCAG
1 AAATCATTTT-CAG
*
43543554 AAATCATTTTCTG
1 AAATCATTTTCAG
43543567 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
43543581 TAAATCA
1 -AAATCA
43543588 AATGGAGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 5 0.17
14 22 0.73
15 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:43549761 original size:29 final size:28
Alignment explanation
Indices: 43549726--43549802 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 28
43549716 CATGAGATTT
43549726 GCACTAAGTGTGCGGGTTTAAATTGTACA-
1 GCACTAAGTGTGCGGGTTTAAA--GTACAG
*
43549755 GCACTAAGTGTGCGAGTTTAAAGTACATG
1 GCACTAAGTGTGCGGGTTTAAAGTACA-G
43549784 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
43549803 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
GCACTAAGTGTGCGGGTTTAAAGTACAG
Done.